MK5 Microarray Data

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.

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Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].

Gene	Rank	Network Comparison Type	description	Filtered	Value Type	Interaction Map	red	network_comparison	green

Results: HTML CSV LaTeX

Showing element 1 to 50 of 77072 in total

Rank	Network Comparison Type	description	Filtered	Value Type	Interaction Map	red	network_comparison	green
1	Divided	adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	Ranked	High confidence	4294	3.70633	15915
		cab2. [refseq;acc:nm_033419]		Squared		0.00001	716592	7.16592
		carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	1	Ranked	Low confidence	16	2	32
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	Squared		0.00001	187479	1.87479
		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1	Measured		2399.5	4.4149	543.5
				Squared		1362.75	19.4914	69.9153
				Rooted		48.9847	2.10117	23.3131
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	Measured	High confidence	364	36400000	0.00001
					Low confidence
				Rooted	High confidence	19.0788	1907880
					Low confidence
		mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]		Ranked		5865	2.55362	14977
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1		High confidence	10	2.4	24
		rad50-interacting protein 1. [refseq;acc:nm_021930]		Measured		450.5	5.31521	2394.5
				Squared		48.0356	28.2513	1357.07
				Rooted		21.225	2.30547	48.9336
	Subtracted	ba508n22.1 (hspc025) (fragment). [sptrembl;acc:q9hcw5]	0	Measured		85	6325	6410
					Low confidence
				Rooted	High confidence	9.20014	50.8706	60.0707
					Low confidence
		carboxypeptidase d precursor (ec 3.4.17.-) (gp180). [swissprot;acc:o75976]	1	Measured		40899	8870.5	32028.5
				Squared		395912	153113	242799
		homeobox protein hlx1 (homeobox protein hb24). [swissprot;acc:q14774]		Ranked	High confidence	215	107	322
		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]			Low confidence	223		330
				Rooted		48.9847	25.6716	23.3131
		mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]		Measured	High confidence	41482.5	8126	33356.5
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0	Ranked		8906	12977	21883
					Low confidence
		nuclear dna-binding protein; small unique nuclear receptor corepressor; c1d dna-binding protein. [refseq;acc:nm_006333]		Squared	High confidence	232467	72283	160184
					Low confidence
		putative glialblastoma cell differentiation-related; putative glialblastoma cell differentiation-related protein. [refseq;acc:nm_016172]	1		High confidence	468498	145743	322755
		rad50-interacting protein 1. [refseq;acc:nm_021930]		Rooted		21.225	27.7086	48.9336
2	Divided	cab2. [refseq;acc:nm_033419]	0	Measured		0.00001	17400000	174
		cell division protein kinase 4 (ec 2.7.1.37) (cyclin-dependent kinase 4) (psk-j3). [swissprot;acc:p11802]	1		Low confidence	2399.5	4.4149	543.5
				Squared		1362.75	19.4914	69.9153
				Rooted		48.9847	2.10117	23.3131
		homeobox protein hox-c4 (hox-3e) (cp19). [swissprot;acc:p09017]	0	Measured		0.00001	8900000	89
				Rooted			943398	9.43398
		homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630]		Squared			187479	1.87479
		lysosome-associated membrane glycoprotein 1 precursor (lamp-1) (cd107a antigen). [swissprot;acc:p11279]	1	Ranked		223	1.47982	330
		mannosyl-oligosaccharide 1,2-alpha-mannosidase ib (ec 3.2.1.113) (processing alpha-1,2-mannosidase ib) (alpha-1,2-mannosidase ib) (mannosidase alpha class 1a member 2). [swissprot;acc:o60476]			High confidence	15	1.86667	28
		mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3]	0		Low confidence	8906	2.45711	21883
		mln 64 protein (star-related lipid transfer protein 3) (stard3) (start domain-containing protein 3) (cab1 protein). [swissprot;acc:q14849]			High confidence	5865	2.55362	14977
		nuclear receptor co-repressor/hdac3 complex subunit tblr1 (tbl1- related protein 1). [swissprot;acc:q9bzk7]		Squared		5.61325	561325	0.00001
				Rooted		12.4097	1240970
		rho-related btb domain-containing protein 2 (deleted in breast cancer 2 gene protein) (p83). [swissprot;acc:q9byz6]	1	Measured		450.5	5.31521	2394.5
				Squared		48.0356	28.2513	1357.07
				Rooted		21.225	2.30547	48.9336
	Subtracted	28s ribosomal protein s17, mitochondrial precursor (mrp-s17) (hspc011). [swissprot;acc:q9y2r5]		Measured	Low confidence	21185	7307	28492
		adp-ribosylation factor gtpase-activating protein 3 (arf gap 3). [swissprot;acc:q9np61]	0	Ranked	High confidence	4294	11621	15915

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.